PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information? help Back to Top

TF ID

model.Picochlorum_contig_29.g48.t1

Organism

Taxonomic ID

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Chlorophyta; Trebouxiophyceae; Trebouxiophyceae incertae sedis; Picochlorum

Family

Protein Properties

Length: 170aa MW: 17827.1 Da PI: 7.762

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
model.Picochlorum_contig_29.g48.t1	genome	Rutgers	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	42.8	8.8e-14	19	43	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 C+gCrt+L+YP GA +VRCa C ++ model.Picochlorum_contig_29.g48.t1 19 CQGCRTMLMYPSGAQNVRCARCSHI 43 **********************996 PP
2	zf-LSD1	33.4	7.3e-11	58	83	1	25
zf-LSD1 1 Cg.gCrtlLsYPrGApsVRCalCdtV 25 C+ +Cr+ L+YPrGA+ V+C+lC t+ model.Picochlorum_contig_29.g48.t1 58 CSpNCRVQLMYPRGATQVQCSLCGTM 83 6679*******************996 PP
3	zf-LSD1	40	6.6e-13	97	121	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 C gC+++L+Y +GA+sV+Ca+C+ V model.Picochlorum_contig_29.g48.t1 97 CDGCQVTLMYAYGARSVKCAVCNVV 121 ***********************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	8.4E-14	16	44	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	4.1E-12	19	43	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	8.4E-9	57	84	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	9.2E-10	58	82	IPR005735	Zinc finger, LSD1-type
Gene3D	G3DSA:3.30.40.10	5.4E-4	74	126	IPR013083	Zinc finger, RING/FYVE/PHD-type
TIGRFAMs	TIGR01053	1.0E-9	94	122	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	1.3E-10	97	121	IPR005735	Zinc finger, LSD1-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009814	Biological Process	defense response, incompatible interaction
GO:0034051	Biological Process	negative regulation of plant-type hypersensitive response
GO:0034052	Biological Process	positive regulation of plant-type hypersensitive response
GO:0045595	Biological Process	regulation of cell differentiation
GO:2000121	Biological Process	regulation of removal of superoxide radicals

Sequence ? help Back to Top
Protein Sequence Length: 170 aa Download sequence Send to blast
MSTQPSRPSG SVQQSQLMCQ GCRTMLMYPS GAQNVRCARC SHINPVSQSS DMAQLSCCSP 60 NCRVQLMYPR GATQVQCSLC GTMNDAQQAN QLGHVLCDGC QVTLMYAYGA RSVKCAVCNV 120 VTPVNSETAV GGGSAMSGGG SQQQQQQEQH ATVVVENPSG TQLGVKNDQ*

Functional Description ? help Back to Top
Source	Description
UniProt	Negative regulator of programmed cell death and hypersensitive response (HR). Positive regulator of callus differentiation. {ECO:0000269\|PubMed:15915636}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By light. Down-regulated by dark. {ECO:0000269\|PubMed:15915636}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_005843568.1	7e-49	hypothetical protein CHLNCDRAFT_13521, partial
Swissprot	Q0J7V9	1e-34	LSD1_ORYSJ; Protein LSD1
TrEMBL	E1ZRS9	2e-47	E1ZRS9_CHLVA; Uncharacterized protein (Fragment)
STRING	XP_005843568.1	3e-48	(Chlorella variabilis)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Chlorophytae	OGCP4613	11	11

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G32540.1	4e-36	lsd one like 1

Publications ? help Back to Top
Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764]